Exploration enrichment pathways with differentially expressed (DE) genes between old versus young
Team Le Grand
23 décembre,2021
Genes Set Enrichment Analysis (GSEA) results
GSEA on all genes. This analysis is done by day and cell type on list of genes ranked by padj decreasing. The data base use is genes set from Molecular Signatures DataBase (MSigDB) species :
- species = Mus musculus
- category C2 = online pathway databases and the biomedical literature curated (more details
- subcategory = Canonical pathways ,Reactome database Composed by 1604 pathways.
Descriptives statistics
How many pathways are significatives (padj<0.05)
| ECs | FAPs | sCs | M1 | M2 | Neutro | NumberPathwayEnrichedByDay | |
|---|---|---|---|---|---|---|---|
| D0 | 0 | 71 | 72 | NA | NA | NA | 108 |
| D2 | 0 | 78 | 384 | 5 | 11 | 3 | 398 |
| D4 | 115 | 4 | 325 | 4 | 18 | NA | 346 |
| D7 | 3 | 0 | 20 | NA | 0 | NA | 23 |
| NumberPathwayEnrichedByTypeCell | 115 | 105 | 495 | 9 | 29 | 3 |
Inspected Hierarchical Classement of pathway in REACTOME
All condition combined, there are 527 pathway enriched. In this representation only pathway with upper letter are enriched in at least one condition.
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Inspected the repartition of enrichied pathways across days and type cell
Number pathway
| Numbers conditions enrichis | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 |
|---|---|---|---|---|---|---|---|---|
| Numbers pathways | 254 | 139 | 46 | 28 | 34 | 22 | 3 | 1 |
Pathways founds enriched in 8 conditions
Pathways founds enriched in 7 conditions
Pathways founds enriched in 6 conditions
Pathways founds enriched in 5 conditions
Pathways founds enriched in 4 conditions
Pathways founds enriched in 3 conditions
Pathways founds enriched in 2 conditions
Pathways founds enrichired in 1 condition
